Mercurial > repos > iuc > bam_to_scidx

changeset 2:bd79c4d39af0 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bam_to_scidx commit d12fc0b2960551d8659d7079e15a3d4e214786b3
author iuc
date Wed, 15 Jun 2016 10:50:24 -0400
parents ebbf2a6a4c55
children 11fc60f0e942
files bam_to_scidx.xml
diffstat 1 files changed, 8 insertions(+), 0 deletions(-) [+]
line wrap: on
line diff
--- a/bam_to_scidx.xml	Tue Apr 19 18:10:09 2016 -0400
+++ b/bam_to_scidx.xml	Wed Jun 15 10:50:24 2016 -0400
@@ -3,6 +3,14 @@
     <requirements>
         <requirement type="package" version="8.0.45">java-jdk</requirement>
     </requirements>
+    <stdio>
+        <!-- Anything other than zero is an error -->
+        <exit_code range=":-1" />
+        <exit_code range="1:" />
+        <!-- Check stderr in case the return code has not been set -->
+        <regex match="Error:" />
+        <regex match="Exception:" />
+    </stdio>
     <command>
         <![CDATA[
             ln -f -s "${input_bam.metadata.bam_index}" "${input_bam}.bai" &&